PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Ciclev10003317m

Common Name

CICLE_v10003317mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

ARF

Protein Properties

Length: 547aa MW: 60682 Da PI: 6.419

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10003317m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	66.3	4.4e-21	127	228	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k+lt sd++++g +++ ++a+++ +++ ++l+ +d++g++W++++i+r +++r++lt GW+ Fv++++L +gD ++F + Ciclev10003317m 127 FCKTLTASDTSTHGGFSVLHRHADDClppldmsRQPP--WQELVATDLHGNEWNFRHIFRDQPRRHLLTIGWSVFVSSKKLVAGDAFIFL--RG 216 99**************************9743333..358********************************************..34 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 +++el+v+v+r+ Ciclev10003317m 217 ENEELRVGVRRH 228 88889**996 PP
2	Auxin_resp	107.4	1.6e-35	253	335	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t++ F+++Y+Pr+s+seF+v+v+k+++a k+k+svGm fkm fe+e+++e+r+sGt+vgv d++++ Wp+S+WrsLk Ciclev10003317m 253 ASHAIATGTLFSIFYKPRTSRSEFIVSVNKYLEAKKHKLSVGMGFKMTFEGEEVPEQRFSGTIVGVGDCKSSVWPDSEWRSLK 335 789******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.4E-40	117	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.7E-39	124	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.56E-18	125	227	No hit	No description
SMART	SM01019	6.7E-22	127	229	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.7E-19	127	228	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.602	127	229	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.9E-34	253	335	IPR010525	Auxin response factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009734	Biological Process	auxin-activated signaling pathway
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 547 aa Download sequence Send to blast
MSFAAAAVPL NHASGGGSND ALYRELWHAC AGPLATLPCE GQRVYYFPQG HMEQLEASMH 60 QELEQQMPSF NLPSKILCKV VNVQRRAEPE TDEVYAQITL LPEPDQSEVT SPDPPIPEPE 120 KCTVHSFCKT LTASDTSTHG GFSVLHRHAD DCLPPLDMSR QPPWQELVAT DLHGNEWNFR 180 HIFRDQPRRH LLTIGWSVFV SSKKLVAGDA FIFLRGENEE LRVGVRRHMR QQTNMPSSVI 240 SSHSMHLGVL AIASHAIATG TLFSIFYKPR TSRSEFIVSV NKYLEAKKHK LSVGMGFKMT 300 FEGEEVPEQR FSGTIVGVGD CKSSVWPDSE WRSLKVQWDE PSSILRPDRV SSWELEPLVA 360 TTTTTNAQPA QRNKRSRPPV LPSPAAWDEP SSILRPDRVS SWELEPLVAT TTTTNAQTAQ 420 RNKRSRPPVS PSPAADISVL ENLTESFAPV VNKESSEKRQ GNGNTCRQFG IPHIDNSNVE 480 EASPAFTMSG AMGDDRAIPC LDADSDQHSE PSNINRSDVP SVSCDAEKSC PRSPQESQSR 540 QIRSCTK

Sequence ? help Back to Top

Protein Sequence Length: 547 aa Download sequence Send to blast

MSFAAAAVPL NHASGGGSND ALYRELWHAC AGPLATLPCE GQRVYYFPQG HMEQLEASMH  60
QELEQQMPSF NLPSKILCKV VNVQRRAEPE TDEVYAQITL LPEPDQSEVT SPDPPIPEPE  120
KCTVHSFCKT LTASDTSTHG GFSVLHRHAD DCLPPLDMSR QPPWQELVAT DLHGNEWNFR  180
HIFRDQPRRH LLTIGWSVFV SSKKLVAGDA FIFLRGENEE LRVGVRRHMR QQTNMPSSVI  240
SSHSMHLGVL AIASHAIATG TLFSIFYKPR TSRSEFIVSV NKYLEAKKHK LSVGMGFKMT  300
FEGEEVPEQR FSGTIVGVGD CKSSVWPDSE WRSLKVQWDE PSSILRPDRV SSWELEPLVA  360
TTTTTNAQPA QRNKRSRPPV LPSPAAWDEP SSILRPDRVS SWELEPLVAT TTTTNAQTAQ  420
RNKRSRPPVS PSPAADISVL ENLTESFAPV VNKESSEKRQ GNGNTCRQFG IPHIDNSNVE  480
EASPAFTMSG AMGDDRAIPC LDADSDQHSE PSNINRSDVP SVSCDAEKSC PRSPQESQSR  540
QIRSCTK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	11	358	5	355	Auxin response factor 1
4ldw_A	0.0	11	358	5	355	Auxin response factor 1
4ldw_B	0.0	11	358	5	355	Auxin response factor 1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. {ECO:0000269\|PubMed:16176952}.
Uniprot	TISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269\|PubMed:10476078}.

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16176952}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006470824.1	0.0	auxin response factor 1 isoform X2
Refseq	XP_024951547.1	0.0	auxin response factor 1 isoform X5
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	V4SAZ2	0.0	V4SAZ2_9ROSI; Auxin response factor (Fragment)
STRING	XP_006431458.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8825	22	27

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.3	0.0	auxin response factor 1

Link Out ? help Back to Top
Phytozome	Ciclev10003317m
Entrez Gene	18040264

Publications ? help Back to Top
Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum. Plant J., 2014. 80(6): p. 1014-30 [PMID:25312353] Marais C, et al. The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana. J. Exp. Bot., 2015. 66(21): p. 6665-78 [PMID:26208648] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131]